Plant Circular RNA Database

Detail information of Solyc06g008160.2_circ_g.3

			
						 General Information
					
						CircRNA Name
						Solyc06g008160.2_circ_g.3
					
						ID in PlantcircBase
						sly_circ_001873
					
						Alias
						6:2044518|2047758, Slcirc084
					
						Organism
						
							Solanum lycopersicum						
					
						Position
						
							chr6: 2044518-2047758  JBrowse»						
					
						Reference genome
						
							SL2.50.38						
					
						Type  
						
							ei-circRNA							
									
						Identification method
						Segemehl, CIRI
					
						Parent gene
						
							Solyc06g008160.2						
					
						Parent gene annotation
						
							Protein FLUORESCENT IN BLUE LIGHT, chloroplastic
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Solyc06g008160.2_circ_g.1 Solyc06g008160.2_circ_g.2 						
					
						Support reads
						5/32
					
						Tissues
						fruit/leaf
					
						Exon boundary  
						
							Yes-No							"Exon boundary" shows whether the splicing sites are on the boundary of exons or not. For example, "Yes-No" represents the donor splicing site is on the exon boundary and the accepter is not on the exon boundary.

						Splicing signals  
						
							CT-AC							The splicing signals of the circRNA. For example, "AG-GT" represents that the donor and the accepter splicing signal is "AG" and "GT", respectively.

						Number of exons covered
						Solyc06g008160.2.1:2

General Information
CircRNA Name	Solyc06g008160.2_circ_g.3
ID in PlantcircBase	sly_circ_001873
Alias	6:2044518\|2047758, Slcirc084
Organism	Solanum lycopersicum
Position	chr6: 2044518-2047758 JBrowse»
Reference genome	SL2.50.38
Type	ei-circRNA
Identification method	Segemehl, CIRI
Parent gene	Solyc06g008160.2
Parent gene annotation	Protein FLUORESCENT IN BLUE LIGHT, chloroplastic
Parent gene strand	-
Alternative splicing	Solyc06g008160.2_circ_g.1 Solyc06g008160.2_circ_g.2
Support reads	5/32
Tissues	fruit/leaf
Exon boundary	Yes-No "Exon boundary" shows whether the splicing sites are on the boundary of exons or not. For example, "Yes-No" represents the donor splicing site is on the exon boundary and the accepter is not on the exon boundary.
Splicing signals	CT-AC The splicing signals of the circRNA. For example, "AG-GT" represents that the donor and the accepter splicing signal is "AG" and "GT", respectively.
Number of exons covered	Solyc06g008160.2.1:2

			
						 Experimental Information
					
						Sanger sequencing for BSS  
						
							NA							Sanger sequencing for back-splicing site (BSS) validation. "Yes" represents Sanger sequencing has been performed to valid the back-splicing site, "No" represents the opposite, "NA" represents "not available".

						PCR primers for BSS   
						
							NA							PCR primers used in back-splicing site (BSS) validation.

						Sanger sequencing for FL   
						
							NA							Sanger sequencing for full-length (FL) sequence validation of circRNAs. "Yes" represents Sanger sequencing has been performed to valid the full-length of circRNA, "No" represents the opposite.

						PCR primers for FL   
						
							NA							 PCR primers used in full-length (FL) sequence validation.

Experimental Information
Sanger sequencing for BSS	NA Sanger sequencing for back-splicing site (BSS) validation. "Yes" represents Sanger sequencing has been performed to valid the back-splicing site, "No" represents the opposite, "NA" represents "not available".
PCR primers for BSS	NA PCR primers used in back-splicing site (BSS) validation.
Sanger sequencing for FL	NA Sanger sequencing for full-length (FL) sequence validation of circRNAs. "Yes" represents Sanger sequencing has been performed to valid the full-length of circRNA, "No" represents the opposite.
PCR primers for FL	NA PCR primers used in full-length (FL) sequence validation.

			
				
						 Sequences
					

				
						Splice junction sequence  
						
							CAACTTCACATGTTTCAGCCAAGGCATCTAAGGGTGAAGTCATCATCAATGCATTAGCCACGAT
AATTGTCGCTGCAGAGTTCCTAAACTGCAATATTTCctaagccccgagctgctttcttttccct
taaaggttcctttaaattttgtgcaaggtcgagagcagctttaaactccaattgcgccttatct
ggcgcttg

									
								

					

						Assembled circRNA sequence  
						
							NA
The sequence of a circRNA based on assembly using circseq-cup (Ye et al., 2016) or CIRI-full (Zheng and Zhao, 2018) or CIRCexplorer2 (Zhang et al., 2016).

					

						Full-length trsnacripts
						
							NA						
					

						Genomic sequence
						
							CTAAGCCCCGAGCTGCTTTCTTTTCCCTTAAAGGTTCCTTTAAATTTTGTGCAAGGTCGAGAGC
AGCTTTAAACTCCAATTGCGCCTTATCTGGCGCTTGGTTTCTAAGAAATTTCTTCCCATTTTTC
AAACGAGATATTAATTCTTCCTTTCTTGGATCAACAATCACTTCAGTTTCTGCAACCCTGCCAC
CAGCAGGAGCGTAACTTAAGTTAGGTGCATAAGACTCAATCTTGGCTTGCCTTCGTAGAGCAGC
GTTGATCTGGCGGAGCTGTTCATTCAACCGCTGCAATTCTGCTTTTCGCTGACGCGCAACTAGT
CCTGCAAATACAAATGTAGTAAATATGTAGAACACACAGGCATGAGGCAACTAACAACAATCTA
AAACTAGGGAATCACAAAATAGGAACAAGGAAAACCATGCTCCGGCTAAGACAAGCTGTCAGCC
CACACATGATTTGTGACACCTCATGAACCAAATGACAGAGAGAAAACATTGAAACTACAAAGAA
AGCCTCAAAGAAAATACTCTGAAAAGCCTTTTGTCATGGACAGAAAGTCACTGGTGCCCATCTA
CCAATTGTAGTTTCATATTTTTTTAAGGCTTGTGTATTAGTTTCTGATGCCAAGGGATATGCCT
ACTCATCTCCAGGAAAAACAGCAGAATAAGCTTACTTTTCTGTGGTAAACGTGAATCGCACTGT
TATTTCCTCCAGTTTGCGTTCAGTATATAGTACAATTGACTATTGTTATTGCACTCATCTAAGT
CTTTTTTTTTCTTTTGAGAAAGATTAAGTTGTATTCCTCAGCAATGAGGGTATGCTGGCAACCA
TCAAGAAACTACAAGGCAAGTAATCCTAATTACAGAGAGTGTAGGAAATCTACTAGCTGTTCTA
CCTCATCTATACCCTTTTCTTTACACCAACAATATACAGTACTAATGCAGTTTTCTGTTACTTT
CTGCATTGGTTTAGTAATATTCTGAAAACATCTATTATTTCTTTCCTTCCAAAACTGACCACCA
TATGGCAAGAAGGAATTAAGCTCCACCATTTTCTCTGCTTTTTACTCTCACCTCTCCTCATCCA
ACAGCTTAGAAGATCTGCAGTATACTCAGGCATCACCCATGGTTCTTGAATAAGATTGAGAAAC
ATATGCCAAACCTGAGCATATGAAGAAACAGACGACTAGTTTGTTTCTTTCCTTTCATTGCAAA
AGAAACACCTAGAGACAATATGAAAACCTCTCTTTTTCAGTTCTCCTAAGTCGGTCACGCTCTT
CTGCATACCAGTCATGTGAAACACTTGATCTTGGTAGGGATATTAGATTTTCATACTTGTTTCC
AAGGTCCAGAGATGCTCCCACATTGTGAGGACAGATTTCTTCTTGGTACAATCTTCCAGCTGAA
AATTTCTCATCCATATCATGCCTCCATCTGATTGTATCAGGCTGGTATTTAAACCAGAGAAACC
ATCCAATCTTTGCAGTAAGCTGTCCACTCTCTCAACCTCGCAGTCATTTAGAAGCCTCCTAAAG
ATGATATTTCATCCTTGGTGAGTCCAAGTCTCAGCAATAGATTCTTCAGAGTTGTAACAGTAAG
ACAATAAATCTGGAAAATCCTCTGAGTGAATTCTGGTCACTCATCTAAAAGTCTTTTAACCTTT
TCAATTATAATATTAAAGAGTGCAACATTGTCATTGGCAAAGCACAACTGCTAGCTGGTTTTAG
ACATTTTTGTATAATGGTATGATCTAGTGTGGATGATTGACAGAAAAGGAATAGATATCAGTGT
TAATGTATGGGTCACAAAGAGATGATGCTGGTACCGATATGATATATATAAGTGGAGAAAAAGA
GAATGGTGAAGTGAGACTAGATAAGGTTAATTGCTGGGGAAAGGATACACAAAGGGATCTCGTC
GAAGCCATGGGAAGAGGTGACACATCTTTAGCTTATTGAGGACATGACCCTTGTTAGGAGGCTG
TGGAGGTCGAGTATCAGAGGAGGGTTAGTAGGTTGAGCATATTTTGTTTTTTCGTATCATGGTA
TTAGTATCTTTTTAACGTTGCTTATTCTTAGACCCCAAGTACCACCTGATTGTTTCTTTCACTC
TGTTTATCTTATTATCTTGTTACTGCTTCCTTTTCATCTCTCCTTGAGTTGAGGGTCTATCGGA
AACAGCCTTCCAACCCTCACAAGGTTAGGGGGTAAGGTATGTGTACACTCTACCCTTCCGAAAC
CCAACTATGGAATTATATTGGGTTTGTTGTGGTTGAAATATGATGCTAGTGTTTGCAGAATAGG
CTGAAGATCTTGATGATTGGCGATTGCAATGTACAACCTTTGAATATCTTATACTTCCTGTCAA
AATTAAAACAGAAGTACTTTTTACAAAAGAGCACAACTATAGCACCTATGCAATTATCTGTTCT
GTTAACTACTCAAAGTTTCATCCTCTTTTATGTTTGAATGACCACCTGAAGAGGCACAAGTTTC
TGCAAAATGGCATCAACCTTTTACCTTTGGAGGTCAGCGCCATGAACAAATATAGAATTTTTTT
ACCGTAGTCATAAATCTCATTAACACAACTTGTAAGTAGGAAGTTCATCATGTTTTGGTTGTGA
ACTGATGAATAAGTGTCCGGGTGAACTCCAAGGTTCTAAGCAGATATCCAAAATGTATCATGCT
AGATATGAAAAACTTCTAACTTTAAGAATAAAATTTGAATCCCCAATGAATCTTATGAATGCCT
TTCTGGAAATGAGTAGTTTGTACATCATATGTAACATTCTCTCATGTATACAGCAACATGGGGT
CCAGGGAGGGTAGGATACAGAGAGGCTGTTTCTGATAAACCCTCGGCTCAAGAAAATAATTTTT
TATGTACATTTTATCATGTATAATAATGTTTATATTCATTCATACTTTACAATTTTCTGGGTCT
ATGACTAAAAGAGTAACGGCAATCCCCAACAGTATGCACAATGGTATTTCTATTCAAAGTTAAT
AGGCCAAAAAGGAAAAATGATGGGCTCAAGGGCTCGACACATAATTTAAGCACCTTACCTCCAA
CAGTGGCCCCAATAAGCGCAACAAGCAGCAGTATGGGCATGTTGAAGAGCATGTTGAAGGGAGA
ATTATCAACTTCACATGTTTCAGCCAAGGCATCTAAGGGTGAAGTCATCATCAATGCATTAGCC
ACGATAATTGTCGCTGCAGAGTTCCTAAACTGCAATATTTC
						
					

			
		

Sequences
Splice junction sequence	CAACTTCACATGTTTCAGCCAAGGCATCTAAGGGTGAAGTCATCATCAATGCATTAGCCACGAT AATTGTCGCTGCAGAGTTCCTAAACTGCAATATTTCctaagccccgagctgctttcttttccct taaaggttcctttaaattttgtgcaaggtcgagagcagctttaaactccaattgcgccttatct ggcgcttg
Assembled circRNA sequence	NA The sequence of a circRNA based on assembly using circseq-cup (Ye et al., 2016) or CIRI-full (Zheng and Zhao, 2018) or CIRCexplorer2 (Zhang et al., 2016).
Full-length trsnacripts	NA
Genomic sequence	CTAAGCCCCGAGCTGCTTTCTTTTCCCTTAAAGGTTCCTTTAAATTTTGTGCAAGGTCGAGAGC AGCTTTAAACTCCAATTGCGCCTTATCTGGCGCTTGGTTTCTAAGAAATTTCTTCCCATTTTTC AAACGAGATATTAATTCTTCCTTTCTTGGATCAACAATCACTTCAGTTTCTGCAACCCTGCCAC CAGCAGGAGCGTAACTTAAGTTAGGTGCATAAGACTCAATCTTGGCTTGCCTTCGTAGAGCAGC GTTGATCTGGCGGAGCTGTTCATTCAACCGCTGCAATTCTGCTTTTCGCTGACGCGCAACTAGT CCTGCAAATACAAATGTAGTAAATATGTAGAACACACAGGCATGAGGCAACTAACAACAATCTA AAACTAGGGAATCACAAAATAGGAACAAGGAAAACCATGCTCCGGCTAAGACAAGCTGTCAGCC CACACATGATTTGTGACACCTCATGAACCAAATGACAGAGAGAAAACATTGAAACTACAAAGAA AGCCTCAAAGAAAATACTCTGAAAAGCCTTTTGTCATGGACAGAAAGTCACTGGTGCCCATCTA CCAATTGTAGTTTCATATTTTTTTAAGGCTTGTGTATTAGTTTCTGATGCCAAGGGATATGCCT ACTCATCTCCAGGAAAAACAGCAGAATAAGCTTACTTTTCTGTGGTAAACGTGAATCGCACTGT TATTTCCTCCAGTTTGCGTTCAGTATATAGTACAATTGACTATTGTTATTGCACTCATCTAAGT CTTTTTTTTTCTTTTGAGAAAGATTAAGTTGTATTCCTCAGCAATGAGGGTATGCTGGCAACCA TCAAGAAACTACAAGGCAAGTAATCCTAATTACAGAGAGTGTAGGAAATCTACTAGCTGTTCTA CCTCATCTATACCCTTTTCTTTACACCAACAATATACAGTACTAATGCAGTTTTCTGTTACTTT CTGCATTGGTTTAGTAATATTCTGAAAACATCTATTATTTCTTTCCTTCCAAAACTGACCACCA TATGGCAAGAAGGAATTAAGCTCCACCATTTTCTCTGCTTTTTACTCTCACCTCTCCTCATCCA ACAGCTTAGAAGATCTGCAGTATACTCAGGCATCACCCATGGTTCTTGAATAAGATTGAGAAAC ATATGCCAAACCTGAGCATATGAAGAAACAGACGACTAGTTTGTTTCTTTCCTTTCATTGCAAA AGAAACACCTAGAGACAATATGAAAACCTCTCTTTTTCAGTTCTCCTAAGTCGGTCACGCTCTT CTGCATACCAGTCATGTGAAACACTTGATCTTGGTAGGGATATTAGATTTTCATACTTGTTTCC AAGGTCCAGAGATGCTCCCACATTGTGAGGACAGATTTCTTCTTGGTACAATCTTCCAGCTGAA AATTTCTCATCCATATCATGCCTCCATCTGATTGTATCAGGCTGGTATTTAAACCAGAGAAACC ATCCAATCTTTGCAGTAAGCTGTCCACTCTCTCAACCTCGCAGTCATTTAGAAGCCTCCTAAAG ATGATATTTCATCCTTGGTGAGTCCAAGTCTCAGCAATAGATTCTTCAGAGTTGTAACAGTAAG ACAATAAATCTGGAAAATCCTCTGAGTGAATTCTGGTCACTCATCTAAAAGTCTTTTAACCTTT TCAATTATAATATTAAAGAGTGCAACATTGTCATTGGCAAAGCACAACTGCTAGCTGGTTTTAG ACATTTTTGTATAATGGTATGATCTAGTGTGGATGATTGACAGAAAAGGAATAGATATCAGTGT TAATGTATGGGTCACAAAGAGATGATGCTGGTACCGATATGATATATATAAGTGGAGAAAAAGA GAATGGTGAAGTGAGACTAGATAAGGTTAATTGCTGGGGAAAGGATACACAAAGGGATCTCGTC GAAGCCATGGGAAGAGGTGACACATCTTTAGCTTATTGAGGACATGACCCTTGTTAGGAGGCTG TGGAGGTCGAGTATCAGAGGAGGGTTAGTAGGTTGAGCATATTTTGTTTTTTCGTATCATGGTA TTAGTATCTTTTTAACGTTGCTTATTCTTAGACCCCAAGTACCACCTGATTGTTTCTTTCACTC TGTTTATCTTATTATCTTGTTACTGCTTCCTTTTCATCTCTCCTTGAGTTGAGGGTCTATCGGA AACAGCCTTCCAACCCTCACAAGGTTAGGGGGTAAGGTATGTGTACACTCTACCCTTCCGAAAC CCAACTATGGAATTATATTGGGTTTGTTGTGGTTGAAATATGATGCTAGTGTTTGCAGAATAGG CTGAAGATCTTGATGATTGGCGATTGCAATGTACAACCTTTGAATATCTTATACTTCCTGTCAA AATTAAAACAGAAGTACTTTTTACAAAAGAGCACAACTATAGCACCTATGCAATTATCTGTTCT GTTAACTACTCAAAGTTTCATCCTCTTTTATGTTTGAATGACCACCTGAAGAGGCACAAGTTTC TGCAAAATGGCATCAACCTTTTACCTTTGGAGGTCAGCGCCATGAACAAATATAGAATTTTTTT ACCGTAGTCATAAATCTCATTAACACAACTTGTAAGTAGGAAGTTCATCATGTTTTGGTTGTGA ACTGATGAATAAGTGTCCGGGTGAACTCCAAGGTTCTAAGCAGATATCCAAAATGTATCATGCT AGATATGAAAAACTTCTAACTTTAAGAATAAAATTTGAATCCCCAATGAATCTTATGAATGCCT TTCTGGAAATGAGTAGTTTGTACATCATATGTAACATTCTCTCATGTATACAGCAACATGGGGT CCAGGGAGGGTAGGATACAGAGAGGCTGTTTCTGATAAACCCTCGGCTCAAGAAAATAATTTTT TATGTACATTTTATCATGTATAATAATGTTTATATTCATTCATACTTTACAATTTTCTGGGTCT ATGACTAAAAGAGTAACGGCAATCCCCAACAGTATGCACAATGGTATTTCTATTCAAAGTTAAT AGGCCAAAAAGGAAAAATGATGGGCTCAAGGGCTCGACACATAATTTAAGCACCTTACCTCCAA CAGTGGCCCCAATAAGCGCAACAAGCAGCAGTATGGGCATGTTGAAGAGCATGTTGAAGGGAGA ATTATCAACTTCACATGTTTCAGCCAAGGCATCTAAGGGTGAAGTCATCATCAATGCATTAGCC ACGATAATTGTCGCTGCAGAGTTCCTAAACTGCAATATTTC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.719973364

Conservation Information
Conserved circRNAs	NA
PMCS	0.719973364

			
						 Functional Information
					
						Coding potential
						N
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	N
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Tan et al., 2017; Yin et al., 2018; Wang et al., 2018b

circRNA

Detail information of Solyc06g008160.2_circ_g.3

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